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Protein

Granzyme B

Gene

Gzmb

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

This enzyme is necessary for target cell lysis in cell-mediated immune responses. It cleaves after Asp. Seems to be linked to an activation cascade of caspases (aspartate-specific cysteine proteases) responsible for apoptosis execution. Cleaves caspase-3, -7, -9 and 10 to give rise to active enzymes mediating apoptosis (By similarity).By similarity

Catalytic activityi

Preferential cleavage: -Asp-|-Xaa- >> -Asn-|-Xaa- > -Met-|-Xaa-, -Ser-|-Xaa-.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei65Charge relay system1 Publication1
Active sitei109Charge relay system1 Publication1
Active sitei204Charge relay system1 Publication1
Sitei229Mediates preference for Asp-containing substrates1

GO - Molecular functioni

  • serine-type endopeptidase activity Source: RGD

GO - Biological processi

  • apoptotic process Source: UniProtKB-KW
  • cytolysis Source: UniProtKB-KW
  • immune response Source: GO_Central
  • positive regulation of cell death Source: RGD
  • positive regulation of necroptotic process Source: RGD
  • protein processing Source: GO_Central
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Serine protease

Keywords - Biological processi

Apoptosis, Cytolysis

Enzyme and pathway databases

BRENDAi3.4.21.79. 5301.
ReactomeiR-RNO-75108. Activation, myristolyation of BID and translocation to mitochondria.

Protein family/group databases

MEROPSiS01.091.

Names & Taxonomyi

Protein namesi
Recommended name:
Granzyme B (EC:3.4.21.79)
Alternative name(s):
Fragmentin
Natural killer cell protease 1
RNKP-1
Gene namesi
Name:Gzmb
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 15

Organism-specific databases

RGDi620018. Gzmb.

Subcellular locationi

GO - Cellular componenti

  • early endosome Source: RGD
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 18Add BLAST18
PropeptideiPRO_000002742519 – 20Activation peptide1 Publication2
ChainiPRO_000002742621 – 248Granzyme BAdd BLAST228

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi50 ↔ 66PROSITE-ProRule annotation1 Publication
Disulfide bondi143 ↔ 210PROSITE-ProRule annotation1 Publication
Disulfide bondi174 ↔ 189PROSITE-ProRule annotation1 Publication

Keywords - PTMi

Disulfide bond, Zymogen

Proteomic databases

PaxDbiP18291.
PRIDEiP18291.

Expressioni

Gene expression databases

BgeeiENSRNOG00000045973.
ExpressionAtlasiP18291. baseline and differential.
GenevisibleiP18291. RN.

Interactioni

Protein-protein interaction databases

IntActiP18291. 1 interactor.
STRINGi10116.ENSRNOP00000056412.

Structurei

Secondary structure

1248
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi35 – 41Combined sources7
Beta strandi49 – 56Combined sources8
Beta strandi59 – 62Combined sources4
Helixi64 – 66Combined sources3
Beta strandi69 – 76Combined sources8
Beta strandi88 – 97Combined sources10
Turni103 – 106Combined sources4
Beta strandi111 – 117Combined sources7
Beta strandi142 – 148Combined sources7
Beta strandi150 – 152Combined sources3
Beta strandi162 – 168Combined sources7
Helixi171 – 177Combined sources7
Turni178 – 181Combined sources4
Turni184 – 186Combined sources3
Beta strandi187 – 191Combined sources5
Beta strandi206 – 210Combined sources5
Beta strandi213 – 222Combined sources10
Beta strandi229 – 233Combined sources5
Helixi234 – 237Combined sources4
Helixi238 – 245Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1FI8X-ray2.20A/B21-248[»]
ProteinModelPortaliP18291.
SMRiP18291.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP18291.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini21 – 246Peptidase S1PROSITE-ProRule annotationAdd BLAST226

Sequence similaritiesi

Belongs to the peptidase S1 family. Granzyme subfamily.PROSITE-ProRule annotation
Contains 1 peptidase S1 domain.PROSITE-ProRule annotation

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiKOG3627. Eukaryota.
COG5640. LUCA.
GeneTreeiENSGT00760000118895.
HOVERGENiHBG013304.
InParanoidiP18291.
KOiK01353.
OrthoDBiEOG091G0G5F.
PhylomeDBiP18291.
TreeFamiTF333630.

Family and domain databases

CDDicd00190. Tryp_SPc. 1 hit.
InterProiIPR009003. Peptidase_S1_PA.
IPR001314. Peptidase_S1A.
IPR001254. Trypsin_dom.
IPR018114. TRYPSIN_HIS.
IPR033116. TRYPSIN_SER.
[Graphical view]
PfamiPF00089. Trypsin. 1 hit.
[Graphical view]
PRINTSiPR00722. CHYMOTRYPSIN.
SMARTiSM00020. Tryp_SPc. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
PROSITEiPS50240. TRYPSIN_DOM. 1 hit.
PS00134. TRYPSIN_HIS. 1 hit.
PS00135. TRYPSIN_SER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P18291-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLLLLLLSF SLAPKTEAGE IIGGHEAKPH SRPYMAYLQI MDEYSGSKKC
60 70 80 90 100
GGFLIREDFV LTAAHCSGSK INVTLGAHNI KEQEKMQQII PVVKIIPHPA
110 120 130 140 150
YNSKTISNDI MLLKLKSKAK RSSAVKPLNL PRRNVKVKPG DVCYVAGWGK
160 170 180 190 200
LGPMGKYSDT LQEVELTVQE DQKCESYLKN YFDKANEICA GDPKIKRASF
210 220 230 240
RGDSGGPLVC KKVAAGIVSY GQNDGSTPRA FTKVSTFLSW IKKTMKKS
Length:248
Mass (Da):27,326
Last modified:November 1, 1990 - v1
Checksum:i6F52089DDACCC88C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti98H → F AA sequence (PubMed:1732416).Curated1
Sequence conflicti138K → D AA sequence (PubMed:1732416).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M34097 mRNA. Translation: AAA42055.1.
PIRiA43520.
RefSeqiNP_612526.2. NM_138517.3.
XP_002728303.2. XM_002728257.5.
XP_017460403.1. XM_017604914.1.
UniGeneiRn.21395.

Genome annotation databases

EnsembliENSRNOT00000041430; ENSRNOP00000040429; ENSRNOG00000049976.
ENSRNOT00000059660; ENSRNOP00000056412; ENSRNOG00000045973.
GeneIDi100361468.
171528.
KEGGirno:100361468.
rno:171528.
UCSCiRGD:620018. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M34097 mRNA. Translation: AAA42055.1.
PIRiA43520.
RefSeqiNP_612526.2. NM_138517.3.
XP_002728303.2. XM_002728257.5.
XP_017460403.1. XM_017604914.1.
UniGeneiRn.21395.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1FI8X-ray2.20A/B21-248[»]
ProteinModelPortaliP18291.
SMRiP18291.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP18291. 1 interactor.
STRINGi10116.ENSRNOP00000056412.

Protein family/group databases

MEROPSiS01.091.

Proteomic databases

PaxDbiP18291.
PRIDEiP18291.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000041430; ENSRNOP00000040429; ENSRNOG00000049976.
ENSRNOT00000059660; ENSRNOP00000056412; ENSRNOG00000045973.
GeneIDi100361468.
171528.
KEGGirno:100361468.
rno:171528.
UCSCiRGD:620018. rat.

Organism-specific databases

CTDi100361468.
3002.
RGDi620018. Gzmb.

Phylogenomic databases

eggNOGiKOG3627. Eukaryota.
COG5640. LUCA.
GeneTreeiENSGT00760000118895.
HOVERGENiHBG013304.
InParanoidiP18291.
KOiK01353.
OrthoDBiEOG091G0G5F.
PhylomeDBiP18291.
TreeFamiTF333630.

Enzyme and pathway databases

BRENDAi3.4.21.79. 5301.
ReactomeiR-RNO-75108. Activation, myristolyation of BID and translocation to mitochondria.

Miscellaneous databases

EvolutionaryTraceiP18291.

Gene expression databases

BgeeiENSRNOG00000045973.
ExpressionAtlasiP18291. baseline and differential.
GenevisibleiP18291. RN.

Family and domain databases

CDDicd00190. Tryp_SPc. 1 hit.
InterProiIPR009003. Peptidase_S1_PA.
IPR001314. Peptidase_S1A.
IPR001254. Trypsin_dom.
IPR018114. TRYPSIN_HIS.
IPR033116. TRYPSIN_SER.
[Graphical view]
PfamiPF00089. Trypsin. 1 hit.
[Graphical view]
PRINTSiPR00722. CHYMOTRYPSIN.
SMARTiSM00020. Tryp_SPc. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
PROSITEiPS50240. TRYPSIN_DOM. 1 hit.
PS00134. TRYPSIN_HIS. 1 hit.
PS00135. TRYPSIN_SER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiGRAB_RAT
AccessioniPrimary (citable) accession number: P18291
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1990
Last modified: November 30, 2016
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.